The following supplement accompanies the article Effects of short-term flooding on aquatic and terrestrial microeukaryotic communities: a mesocosm approach Nadine Graupner*, Oliver Röhl, Manfred Jensen, Daniela Beisser, Dominik Begerow, Jens Boenigk *Corresponding author: [email protected] Aquatic Microbial Ecology 80: 257–272 (2017) Table S1. OTUs invaded by flood with taxonomic assignment, identity (%) of assignment, direction of exchange and the duration of immigration Identity Direction of Duration of OTU Taxonomy (%) exchange immigration Eukaryota; Alveolata; Apicomplexa; Conoidasida; Gregarinasina; environmental only while N980_3291 96.599 into water samples; uncultured gregarine flooding Eukaryota; Alveolata; Ciliophora; Intramacronucleata; Colpodea; Colpodida; only while N8616_30 98.611 into water Colpodidae; Exocolpoda; Exocolpoda augustini flooding Eukaryota; Alveolata; Ciliophora; Intramacronucleata; Litostomatea; Haptoria; only while N869_3477 89.855 into water Haptorida; Spathidiidae; Epispathidium; Epispathidium amphoriforme flooding Eukaryota; Alveolata; Ciliophora; Intramacronucleata; Spirotrichea; Stichotrichia; only while N1012_3463 94.888 into water Stichotrichida; Amphisiellidae; Paraurostyla; Paraurostyla weissei flooding only while N4186_556 Eukaryota; Amoebozoa; Darbyshirella; Darbyshirella sp. 100 into water flooding Eukaryota; Opisthokonta; Fungi; Dikarya; Ascomycota; environmental samples; only while N335_24773 85.66 into water uncultured Ascomycota flooding Eukaryota; Opisthokonta; Fungi; Dikarya; Ascomycota; saccharomyceta; only while N308_12983 Pezizomycotina; leotiomyceta; Eurotiomycetes; Eurotiomycetidae; Eurotiales; 96.978 into water flooding Aspergillaceae; Penicillium; Penicillium oxalicum Eukaryota; Opisthokonta; Fungi; Dikarya; Ascomycota; saccharomyceta; only while N1113_2592 Saccharomycotina; Saccharomycetes; environmental samples; uncultured 95.833 into water flooding Saccharomycetes Eukaryota; Opisthokonta; Fungi; Dikarya; Basidiomycota; Pucciniomycotina; only while N241_22503 Microbotryomycetes; Microbotryomycetes incertae sedis; Chrysozymaceae; 85.591 into water flooding Sampaiozyma; Sampaiozyma sp. BF98 Eukaryota; Rhizaria; Cercozoa; Cercomonadida; Cercomonadidae; only while N1494_1698 95.337 into water Paracercomonas; Paracercomonas sp. DB-0802-29 flooding Eukaryota; Rhizaria; Cercozoa; Plasmodiophorida; Plasmodiophoridae; only while N327_14927 88.304 into water Spongospora; Spongospora sp. HH-2014 flooding Eukaryota; Alveolata; Ciliophora; Intramacronucleata; Colpodea; Colpodida; N5902_145 95.299 into water until day 2 Colpodidae; Colpoda; Colpoda cucullus Eukaryota; Opisthokonta; Fungi; Blastocladiomycota; Blastocladiomycetes; N1811_1061 90.909 into water until day 2 Blastocladiales; Catenariaceae; Catenophlyctis; Catenophlyctis variabilis Eukaryota; Opisthokonta; Fungi; Dikarya; Ascomycota; saccharomyceta; N1212_2370 Pezizomycotina; leotiomyceta; sordariomyceta; Leotiomycetes; Helotiales; 100 into water until day 2 Helotiales incertae sedis; Leptodontidium; Leptodontidium sp. aurim 655 N929_5990 Eukaryota; Opisthokonta; Fungi; environmental samples; uncultured fungus 97.603 into water until day 2 N2404_563 Eukaryota; Opisthokonta; Fungi; environmental samples; uncultured soil fungus 97.333 into water until day 2 Eukaryota; Opisthokonta; Fungi; Glomeromycota; Glomeromycetes; N2580_489 91.613 into water until day 2 Diversisporales; Diversisporaceae; Corymbiglomus; Corymbiglomus tortuosum Eukaryota; Opisthokonta; Fungi; Glomeromycota; Glomeromycetes; Glomerales; N1191_4031 100 into water until day 2 Glomeraceae; environmental samples; uncultured Glomerales Eukaryota; Rhizaria; Cercozoa; Cercomonadida; Cercomonadidae; N843_3747 96.296 into water until day 2 Paracercomonas; Paracercomonas sp. DB-0802-29 Eukaryota; Stramenopiles; Oomycetes; Pythiales; Pythiaceae; Pythium; Pythium N2310_615 99.387 into water until day 2 rostratifingens Eukaryota; Alveolata; Apicomplexa; Conoidasida; Coccidia; Eucoccidiorida; N1318_1763 93.525 into water until day 3 Eimeriorina; Eimeriidae; environmental samples; uncultured Eimeriidae Eukaryota; Alveolata; Ciliophora; Intramacronucleata; Spirotrichea; Stichotrichia; N405_11331 93.375 into water until day 3 Sporadotrichida; Oxytrichidae; environmental samples; uncultured Oxytrichidae 1 Eukaryota; Alveolata; Ciliophora; Intramacronucleata; Spirotrichea; Stichotrichia; N596_6015 92.994 into water until day 3 Sporadotrichida; Oxytrichidae; environmental samples; uncultured Oxytrichidae Eukaryota; Alveolata; Ciliophora; Intramacronucleata; Spirotrichea; Stichotrichia; N665_5257 99.026 into water until day 3 Stichotrichida; environmental samples; uncultured stichotrichid Eukaryota; Opisthokonta; Fungi; Blastocladiomycota; Blastocladiomycetes; N1933_922 95 into water until day 3 Blastocladiales; Blastocladiaceae; Allomyces; Allomyces macrogynus# Eukaryota; Opisthokonta; Fungi; Chytridiomycota; Chytridiomycetes; N453_9902 99.298 into water until day 3 Rhizophlyctidales; Rhizophlyctidaceae; Rhizophlyctis; Rhizophlyctis rosea N1105_2532 Eukaryota; Opisthokonta; Fungi; environmental samples; uncultured fungus 92.669 into water until day 3 N319_18715 Eukaryota; Opisthokonta; Fungi; environmental samples; uncultured fungus 99.609 into water until day 3 N803_6163 Eukaryota; Opisthokonta; Fungi; environmental samples; uncultured fungus 99.048 into water until day 3 N450_8126 Eukaryota; Opisthokonta; Fungi; environmental samples; uncultured soil fungus 89.521 into water until day 3 Eukaryota; Opisthokonta; Fungi; Fungi incertae sedis; Olpidiaceae; Olpidium; N3942_207 99.373 into water until day 3 Olpidium brassicae Eukaryota; Rhizaria; Cercozoa; Cercomonadida; Heteromitidae; Bodomorpha; N589_8244 94.969 into water until day 3 Bodomorpha sp. panama 115 Eukaryota; Stramenopiles; Chrysophyceae; Chromulinales; Chromulinaceae; N3252_320 98.261 into water until day 3 Spumella; Spumella vulgaris Eukaryota; Stramenopiles; Oomycetes; Lagenidiales; Lagenidiaceae; N2599_471 100 into water until day 3 Lagenidium; Lagenidium aff. deciduum strain LEV5864 Eukaryota; Opisthokonta; Fungi; Dikarya; Ascomycota; saccharomyceta; N218_21327 Pezizomycotina; leotiomyceta; sordariomyceta; Sordariomycetes; 96.053 into water until day 3* Xylariomycetidae; Xylariales; Sporocadaceae; Bartalinia; Bartalinia pondoensis Eukaryota; Opisthokonta; Fungi; Dikarya; Basidiomycota; Agaricomycotina; N1178_4607 Agaricomycetes; Agaricomycetes incertae sedis; Auriculariales; Auriculariaceae; 93.525 into water until day 9 environmental samples; uncultured Auriculariaceae Eukaryota; Stramenopiles; Oomycetes; Lagenidiales; Lagenidiaceae; N1087_2513 100 into water until day 9 Lagenidium; unclassified Lagenidium; Lagenidium sp. PWL-2010e N1441_2936 Eukaryota; Opisthokonta; Fungi; environmental samples; uncultured fungus 99.324 into water until day 9** Eukaryota; Opisthokonta; Fungi; Fungi incertae sedis; Mucoromycotina; N988_4473 99.65 into water until the end unclassified Mucoromycotina; mucoromycote sp. 18-M-1 Eukaryota; Opisthokonta; Fungi; Dikarya; Ascomycota; saccharomyceta; until the N1331_2684 Pezizomycotina; leotiomyceta; Eurotiomycetes; Eurotiomycetidae; Eurotiales; 100 into water end* Aspergillaceae; Aspergillus; Aspergillus versicolor Eukaryota; Alveolata; Dinophyceae; Gymnodiniales; Gymnodiniaceae; until the N1141_2169 88.462 into water Nusuttodinium; Nusuttodinium desymbiontum end*** Eukaryota; Alveolata; Ciliophora; Intramacronucleata; Colpodea; Colpodida; N3001_357 97.917 into soil at day 2 Colpodidae; Bresslaua; Bresslaua vorax Eukaryota; Opisthokonta; Fungi; Dikarya; Basidiomycota; Agaricomycotina; N3315_556 Agaricomycetes; Agaricomycetes incertae sedis; Auriculariales; Auriculariaceae; 97.778 into soil at day 2 environmental samples; uncultured Auriculariaceae Eukaryota; Opisthokonta; Fungi; Dikarya; Basidiomycota; Agaricomycotina; N1597_1235 Agaricomycetes; Agaricomycetes incertae sedis; Polyporales; 100 into soil at day 2 Ganodermataceae; Ganoderma; Ganoderma sp. MU-2009-1 # Eukaryota; Opisthokonta; Fungi; Dikarya; Basidiomycota; Agaricomycotina; N1616_2322 Tremellomycetes; Trichosporonales; unclassified Trichosporonales; 99.67 into soil at day 2 Trichosporonales sp. LM547 Eukaryota; Opisthokonta; Fungi; Dikarya; Basidiomycota; Pucciniomycotina; N2665_508 Microbotryomycetes; Sporidiobolales; unclassified Sporidiobolales; 98.802 into soil at day 2 Sporidiobolales sp. LM538 Eukaryota; Rhizaria; Cercozoa; Plasmodiophorida; Plasmodiophoridae; N1142_2168 95.308 into soil at day 2 Polymyxa; Polymyxa graminis; Polymyxa graminis f. sp. tepida Eukaryota; Opisthokonta; Fungi; Chytridiomycota; environmental samples; until the N773_4402 94.479 into soil uncultured Chytridiomycota end** Eukaryota; Opisthokonta; Fungi; Dikarya; Basidiomycota; environmental until the N970_4134 93.564 into soil samples; uncultured Basidiomycota end** *** missing at one time-point of sampling *** missing at two time-points of sampling *** missing at three time-points of sampling # spores or microscopic parts of the fungi 2 Figure S1. Community-composition based on number of OTUs (%) for aquatic non-flooded control samples and aquatic flooded samples (left) as well as terrestrial non-flooded samples and terrestrial flooded samples (right). Figure S2. Taxonomic assignment of OTUs originating from water that have significant (p < 0.05) different read-abundances between the non-flooded control treatment and the flooded treatment. Flooding decreased the read-abundance of 43 OTUs (left) and increased the read abundance of 260 OTUs (right). Taxonomic groups represented by no OTU are illustrated in faded colour and grey text. 3 .